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A comparative genomic hybridization approach to study gene copy number variations among chinese hamster cell lines
Author(s) -
Vishwanathan Nandita,
Bandyopadhyay Arpan,
Fu HsuYuan,
Johnson Kathryn C.,
Springer Nathan M.,
Hu WeiShou
Publication year - 2017
Publication title -
biotechnology and bioengineering
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.136
H-Index - 189
eISSN - 1097-0290
pISSN - 0006-3592
DOI - 10.1002/bit.26311
Subject(s) - comparative genomic hybridization , genetics , chinese hamster , biology , copy number variation , gene dosage , gene , hamster , computational biology , gene duplication , microbiology and biotechnology , genome , cell culture , gene expression
ABSTRACT Chinese Hamster Ovary (CHO) cells are aneuploid in nature. The genome of recombinant protein producing CHO cell lines continuously undergoes changes in its structure and organization. We analyzed nine cell lines, including parental cell lines, using a comparative genomic hybridization (CGH) array focused on gene‐containing regions. The comparison of CGH with copy‐number estimates from sequencing data showed good correlation. Hierarchical clustering of the gene copy number variation data from CGH data revealed the lineage relationships between the cell lines. On analyzing the clones of a clonal population, some regions with altered genomic copy number status were identified indicating genomic changes during passaging. A CGH array is thus an effective tool in quantifying genomic alterations in industrial cell lines and can provide insights into the changes in the genomic structure during cell line derivation and long term culture. Biotechnol. Bioeng. 2017;114: 1903–1908. © 2017 Wiley Periodicals, Inc.